PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Thhalv10026533m

Common Name

EUTSA_v10026533mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Eutremeae; Eutrema

Family

LSD

Protein Properties

Length: 138aa MW: 14475.6 Da PI: 8.5005

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10026533m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	48.6	1.3e-15	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrt+L+Y+rGA+sVRC++C+tV Thhalv10026533m 6 CGGCRTMLMYTRGASSVRCSCCQTV 30 ************************9 PP
2	zf-LSD1	49.6	6.6e-16	44	68	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C++Crt+L+YP+GA+sV+Ca+C++V Thhalv10026533m 44 CEHCRTTLMYPYGASSVKCAVCQFV 68 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	5.8E-19	3	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.5E-13	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.9E-13	41	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.4E-14	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 138 aa Download sequence Send to blast
MAHIICGGCR TMLMYTRGAS SVRCSCCQTV NLVPAHNQVA HINCEHCRTT LMYPYGASSV 60 KCAVCQFVTN VNTGNGRVPL PTNRPNGTAS PGTMPSTSTQ STPPSQTQTV VVENPMSVDE 120 SGKLVSNVVV GVTTDKK*

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of reactive oxygen-induced cell death, cold stress-induced cell death, pathogen-induced hypersensitive response (HR), basal disease resistance. May be involved in the induction of the copper/zinc superoxide dismutase CSD1 and CSD2 that detoxify accumulating superoxide before the reactive oxygen species (ROS) can trigger a cell death cascade. LSD1 and LOL1 have antagonistic effects on CSD1 and CSD2 accumulation to regulate oxidative stress-induced cell death. Antagonizes the function of BZIP10, a positive regulator of cell death, by interacting in the cytoplasm and preventing its nuclear localization. Controls lysigenous aerenchyma in hypocotyls under root hypoxia. Required for leaf acclimation in response to excess excitation energy. {ECO:0000269\|PubMed:10550898, ECO:0000269\|PubMed:11595797, ECO:0000269\|PubMed:11844114, ECO:0000269\|PubMed:12732715, ECO:0000269\|PubMed:15347794, ECO:0000269\|PubMed:16957775, ECO:0000269\|PubMed:18055613, ECO:0000269\|PubMed:18790826, ECO:0000269\|PubMed:20456049, ECO:0000269\|PubMed:21097903}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Thhalv10026533m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By methyl viologen. {ECO:0000269\|PubMed:20456049}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF453322	1e-117	AF453322.1 Brassica oleracea zinc finger protein LSD1 (LSD1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006413872.2	4e-95	protein LSD1 isoform X2
Refseq	XP_024005739.1	5e-95	protein LSD1 isoform X6
Swissprot	P94077	3e-69	LSD1_ARATH; Protein LSD1
TrEMBL	V4LXB4	1e-94	V4LXB4_EUTSA; Uncharacterized protein
STRING	XP_006413872.1	2e-95	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5345	26	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	4e-68	LSD family protein

Link Out ? help Back to Top
Phytozome	Thhalv10026533m
Entrez Gene	18029231

Publications ? help Back to Top
Spedaletti V, et al. Characterization of a lysine-specific histone demethylase from Arabidopsis thaliana. Biochemistry, 2008. 47(17): p. 4936-47 [PMID:18393445] Szechyńska-Hebda M,Czarnocka W,Hebda M,Bernacki MJ,Karpiński S PAD4, LSD1 and EDS1 regulate drought tolerance, plant biomass production, and cell wall properties. Plant Cell Rep., 2016. 35(3): p. 527-39 [PMID:26754794] Czarnocka W, et al. The dual role of LESION SIMULATING DISEASE 1 as a condition-dependent scaffold protein and transcription regulator. Plant Cell Environ., 2017. 40(11): p. 2644-2662 [PMID:28555890] Bernacki MJ, et al. LSD1-, EDS1- and PAD4-dependent conditional correlation among salicylic acid, hydrogen peroxide, water use efficiency and seed yield in Arabidopsis thaliana. Physiol Plant, 2019. 165(2): p. 369-382 [PMID:30461017]